8PPZ

Co-crystal structure of FKBP12, compound 7 and the FRB fragment of mTOR

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	7.5	293	10% PEG8000, 0.1 M HEPES pH 7.5, 0.2 M calcium actetate

Crystal Properties
Matthews coefficient	Solvent content
2.55	51.86

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 39.912	α = 90
b = 64.68	β = 90
c = 93.349	γ = 90

Symmetry
Space Group	P 2 21 21

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	100	PIXEL	DECTRIS PILATUS 6M-F		2020-11-26	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	PETRA III, EMBL c/o DESY BEAMLINE P13 (MX1)	0.976260	PETRA III, EMBL c/o DESY	P13 (MX1)

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	Rpim I (All)	CC (Half)	Net I Over Average Sigma (I)	Redundancy	Number Reflections (All)	Number Reflections (Observed)	Observed Criterion Sigma (F)	Observed Criterion Sigma (I)	B (Isotropic) From Wilson Plot
1	1.85	93.35	96	0.106	0.115	0.044	0.999	15.2	12.8		20522

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	Rpim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.85	1.89			1.367	1.487	0.579	0.806		12.4

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Resolution (High)	Resolution (Low)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	R-Work	R-Free	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	1.85	46.718	20480	1055	96.042	0.194	0.192	0.2383	29.647

Temperature Factor Modeling
Anisotropic B[1][1]	Anisotropic B[1][2]	Anisotropic B[1][3]	Anisotropic B[2][2]	Anisotropic B[2][3]	Anisotropic B[3][3]
2.918			-2.693		-0.225

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	15.916
r_dihedral_angle_3_deg	14.97
r_lrange_it	7.463
r_lrange_other	7.342
r_dihedral_angle_2_deg	6.609
r_dihedral_angle_1_deg	6.203
r_scangle_it	5.733
r_scangle_other	5.73
r_scbond_it	3.937
r_scbond_other	3.935
r_mcangle_it	3.863
r_mcangle_other	3.861
r_mcbond_it	2.845
r_mcbond_other	2.821
r_angle_refined_deg	1.661
r_chiral_restr_other	1.483
r_angle_other_deg	0.638
r_nbd_refined	0.218
r_symmetry_nbd_other	0.19
r_symmetry_nbd_refined	0.188
r_nbtor_refined	0.184
r_symmetry_xyhbond_nbd_refined	0.175
r_chiral_restr	0.174
r_xyhbond_nbd_refined	0.168
r_nbd_other	0.112
r_symmetry_metal_ion_refined	0.11
r_metal_ion_refined	0.084
r_symmetry_nbtor_other	0.08
r_bond_refined_d	0.009
r_gen_planes_refined	0.008
r_bond_other_d	0.003
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1590
Nucleic Acid Atoms
Solvent Atoms	128
Heterogen Atoms	46

Software

Software
Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing